@vitessce/config 3.2.2 → 3.3.0

package/dist/index.js

@@ -32,6 +32,7 @@ const DataType$1 = {
 const FileType$1 = {
   // Joint file types
   ANNDATA_ZARR: "anndata.zarr",
+  SPATIALDATA_ZARR: "spatialdata.zarr",
   // Atomic file types
   OBS_EMBEDDING_CSV: "obsEmbedding.csv",
   OBS_SPOTS_CSV: "obsSpots.csv",
@@ -54,6 +55,16 @@ const FileType$1 = {
   OBS_SEGMENTATIONS_ANNDATA_ZARR: "obsSegmentations.anndata.zarr",
   OBS_LABELS_ANNDATA_ZARR: "obsLabels.anndata.zarr",
   FEATURE_LABELS_ANNDATA_ZARR: "featureLabels.anndata.zarr",
+  // SpatialData
+  IMAGE_SPATIALDATA_ZARR: "image.spatialdata.zarr",
+  LABELS_SPATIALDATA_ZARR: "labels.spatialdata.zarr",
+  SHAPES_SPATIALDATA_ZARR: "shapes.spatialdata.zarr",
+  OBS_FEATURE_MATRIX_SPATIALDATA_ZARR: "obsFeatureMatrix.spatialdata.zarr",
+  OBS_SETS_SPATIALDATA_ZARR: "obsSets.spatialdata.zarr",
+  OBS_SPOTS_SPATIALDATA_ZARR: "obsSpots.spatialdata.zarr",
+  // TODO:
+  // OBS_POINTS_SPATIALDATA_ZARR: 'obsPoints.spatialdata.zarr',
+  // OBS_LOCATIONS_SPATIALDATA_ZARR: 'obsLocations.spatialdata.zarr',
   // MuData
   OBS_FEATURE_MATRIX_MUDATA_ZARR: "obsFeatureMatrix.mudata.zarr",
   OBS_SETS_MUDATA_ZARR: "obsSets.mudata.zarr",
@@ -8983,9 +8994,30 @@ z.object({
   offsetsUrl: z.string().optional(),
   coordinateTransformations: omeCoordinateTransformations.optional()
 });
-z.object({
+const imageOmeZarrSchema = z.object({
   coordinateTransformations: omeCoordinateTransformations.optional()
 });
+imageOmeZarrSchema.extend({
+  path: z.string()
+});
+z.object({
+  path: z.string()
+});
+z.object({
+  path: z.string()
+});
+z.object({
+  path: z.string(),
+  tablePath: z.string().optional().describe("The path to a table which annotates the spots. If available but not specified, the spot identifiers may not be aligned with associated tabular data as expected.")
+});
+annDataObsFeatureMatrix.extend({
+  region: z.string().describe("The name of a region to use to filter instances (i.e., rows) in the table").optional()
+});
+z.object({
+  region: z.string().describe("The name of a region to use to filter instances (i.e., rows) in the table").optional(),
+  tablePath: z.string().optional().describe("The path to a table which contains the index for the set values."),
+  obsSets: annDataObsSets
+});
 z.object({
   obsIndex: z.string(),
   obsEmbedding: z.array(z.string()).length(2)
@@ -15543,9 +15575,9 @@ const schemePlasma = [[13, 8, 135], [16, 7, 136], [19, 7, 137], [22, 7, 138], [2
 function rgbSpline(spline) {
   return (colors) => {
     const n = colors.length;
-    let r = new Array(n);
-    let g = new Array(n);
-    let b = new Array(n);
+    const r = new Array(n);
+    const g = new Array(n);
+    const b = new Array(n);
     let i;
     let color;
     for (i = 0; i < n; ++i) {
@@ -15554,10 +15586,10 @@ function rgbSpline(spline) {
       g[i] = color[1] || 0;
       b[i] = color[2] || 0;
     }
-    r = spline(r);
-    g = spline(g);
-    b = spline(b);
-    return (t2) => [r(t2), g(t2), b(t2)];
+    const rFunc = spline(r);
+    const gFunc = spline(g);
+    const bFunc = spline(b);
+    return (t2) => [rFunc(t2), gFunc(t2), bFunc(t2)];
   };
 }
 function basis(values) {

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@vitessce/config",
-  "version": "3.2.2",
+  "version": "3.3.0",
   "author": "Gehlenborg Lab",
   "homepage": "http://vitessce.io",
   "repository": {
@@ -16,8 +16,8 @@
     "dist-tsc"
   ],
   "dependencies": {
-    "@vitessce/constants-internal": "3.2.2",
-    "@vitessce/utils": "3.2.2"
+    "@vitessce/constants-internal": "3.3.0",
+    "@vitessce/utils": "3.3.0"
   },
   "scripts": {
     "bundle": "pnpm exec vite build -c ../../scripts/vite.config.js",